Plant Circular RNA Database

Detail information of Csa2G270880_circ_g.1

			
						 General Information
					
						CircRNA Name
						Csa2G270880_circ_g.1
					
						ID in PlantcircBase
						csa_circ_001055
					
						Alias
						Chr2:13030229_13033276
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr2: 13030229-13033276  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Csa2G270880						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf,root
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Csa2G270880.1:5

General Information
CircRNA Name	Csa2G270880_circ_g.1
ID in PlantcircBase	csa_circ_001055
Alias	Chr2:13030229_13033276
Organism	Cucumis sativus
Position	chrChr2: 13030229-13033276 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	e-circRNA
Identification method	CIRI2
Parent gene	Csa2G270880
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf,root
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Csa2G270880.1:5

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							TACCATCATCAGATACAAGCCTCACAAAGTCAGCCTTAATTTTATCATTAAGTCGCGGCCCACT
CTTGTCCTTCTCTTCCTTCTTCGCATTACCTTGAAActtcacgcggtaaccacgttccatcaat
cgctttaccatatcagctttcatccttaggtccttctcctcctatagatcagatttaaaaaaag
ctttagaa

									
								

					

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							Transcript length: 390
Transcript exons: 13030229-13030297,13031396-13031452,13032078-13032176,13
032331-13032398,13033180-13033276
CTTCACGCGGTAACCACGTTCCATCAATCGCTTTACCATATCAGCTTTCATCCTTAGGTCCTTC
TCCTCAGTTTTCCCCGTGAAGCGAACTTCTTTGTGTCCAGCCTTTTTCATAACCATTTCAACCT
TGCTTTTCACACGATCTTTTTCCCTTATTTGCTTTTTGTACTTCTCTCTGTGGAAGTCCATGAG
TTTACACACGGGTGGATTAGCTTTTTGTTGAACCTCAACCAAATCAAGCTTGAGCTCACGAGCA
CGTTTAAGAGCATCACGTAGCGAAAGAATTGTATGTCCATCATCAGATACAAGCCTCACAAAGT
CAGCCTTAATTTTATCATTAAGTCGCGGCCCACTCTTGTCCTTCTCTTCCTTCTTCGCATTACC
TTGAAA
						
					

						Genomic sequence
						
							CTTCACGCGGTAACCACGTTCCATCAATCGCTTTACCATATCAGCTTTCATCCTTAGGTCCTTC
TCCTCCTATAGATCAGATTTAAAAAAAGCTTTAGAATCAAATACCAAAAGTGTTATTCCAAGCC
CTCTTAGAGAGCAAAATGTTGTTGATTTGGAGCTGAAGGACTTGGAATGGAGACAGATTTGCAA
CAAAATCGTTTCATAGAGAGAAAGAAACCAAATCCTCAACAATCCTTGGTGAGTGAAAAGATCA
AAAGCATTGTTCGTGTTGTGGTAGTAAAAACAATCGGAGGAAATAAACAAAAGCTGAAACAATA
TAGCAATATTACTAATCTATGCGTATATTTCAAGTTTTTTACTTTTAGATTTCAGGCAATGACA
AATGGGCTAATGAAGATATCCACCTTTGACTTTTAAATGCTTCTATCCACAAACATGTTTGGTT
CATCATATACATATATATAGATAGATAGACAGATACTTCACGAAATTCTCAAATATAAGTTGGT
TAACATCTTGTAAGACCCCTAGTTAGGATTATATGAGGATAATTAGTATGTTTGGTAGGAAGGA
CATTTTAGTAATTAGATACTAAGCTGGTTAGGTTATTTCGCTTTAAATAGAGGGGTTGGGTTGA
GGTAAAGTTGTGAAGAATTTTGTAGTGGGGATTTCCTAAATTGAGGAATGTGGGAGAGGATTCT
CAGCCCTCTTGAATGTGCTGAGGTATATTGTAATTTCTTCTTGATATTGCAATATATATCGATA
TTTTAGTGTTTTTTGGAGTGTTACTGGGTGTTCTTGAGTCTCTTTGTTAGGTGGGATCCTAACA
CATCTTTGGCCACTTGATTTTCATACACCTAAAATGTGCAGGAAAAAAATGCTAAAGATGAATC
AATAAGAACATACTTATCTTGAGCTAACAAGTTGCTTTAAAAAAGATGGTACAGAACTTTCATC
ATTGAACTAGAGCACAAACCATAGTTTAAAACACAACAATCATGGTCACTCAATTCAGTTTTAC
TATAGAGAATAGAGATGGAGAAAGATAGAGACTGAGATAGTAAATTATATTTCATCAGCATGGA
ATTCAATCATATCACCACCAGAGAGTCTACAAGTACATTCCAGACAGCAAAAGGAAACATTAAA
AAATAAGTCACTTACAGTTTTCCCCGTGAAGCGAACTTCTTTGTGTCCAGCCTTTTTCATAACC
ATTTCAACCTGCAAGAATATGAATTTGTCTCATGATAACAACGCTTCATCTAATATCAACTTTA
AGTTGTCATTTCTGAATGCCTGAAAGTACTACTTCTAAGTTCTAACAAGAAAAGGTAACTAAAA
AACCTGGCATAACTTCAAAAGGGCCATTCAATAAAAATAAATTGAAGCCAGAGCTAAAGATATT
TGCATGTCATAGATAGCCTTTAAAACGGTCAAAGTTATTGGAGCAAATTAATGATATCTTTCAT
AGCACCCAACTTAACAAAGCAAAGGCATGGTGAAAAAACAAAATTTTCATACGGGTGGTAATGA
AGCTAGGACAACCAGATTCTGTTGTGTGTTTTATTTATGCAACTATGAAGGTAGTCGAAAAATA
TTAGATGTGTTCAATCATCCATGTTTTTTGGCTGATTAAAATCATGTTCTATTCATTACCAGAA
TGTACAACAATGCGACACTAACTCGACATATAATTTGATGATAGAATAGAGAGAAGCATCAACA
TGGCAGAAAGTAATATATATATATAGATAACAATTATCGAATTTCACATCTCGACTAAAAGCAG
TATCCTTAACTTAACAGTATTAACAAACAGATTTGTACATGGCCTTGAGAAACTCACCTTGCTT
TTCACACGATCTTTTTCCCTTATTTGCTTTTTGTACTTCTCTCTGTGGAAGTCCATGAGTTTAC
ACACGGGTGGATTAGCTTTTTGTTGAACCTGAAAAATATTAGACACATGGAATCAAATTTTGCA
AGACCTAATAATAATTAGAAAAGACTGCATTAATTACCAAGATTATAAGTACAGCTATAATAAA
TATAAGAAGACAACATAAGGTATTACGATAGCAACATTGAAAATGGAAGTTTACCTCAACCAAA
TCAAGCTTGAGCTCACGAGCACGTTTAAGAGCATCACGTAGCGAAAGAATTGTATGTCCTGCAT
AAATACATGCAACACATCAACAATAAATTAATAAACATAATCGACATGCATAATGAAAGCCCAA
CACAATGTTACACACCTTCTCTACCTGAGAAAATCCATTCTGTTAGAGATTTTGGAGATGTATG
ATGGTGGGTGAATTGATTCTTGCTTGGCTACTGGTTTAACGAAGCAGTATGAACTTTAAAGAAC
TTTTTTGATACAGTTCTTTTAATTTAGTTATTTAATAGAGTCTCTTTTTAGGTTTGTTAATGGC
GTCTCCTAAAAGAATTTTTCCATACTAACCTGTGTTTGACATTCTAGTCAAATGGACAATGTTG
TGTACCTCCTGTCCCCCATAAGGAGGACACATTCCTTGTCTAAATTATACATCTTCCTTCTCTT
AAAAAACATACGATAATTTTCTTACTCATACTTCCACTATATTCATGCTACTACTTCTCCATAA
ACAAGTTAGCATACCCATCGTTCATTGCAATTCATAGATGCAATAGTTGCTTTCTAGCAAATTT
CATCCATATAGTGTGTAATTGTACATGAAATACATGAAAAAAAACCAAAATGCTTATCAAATAG
TAGTAAACACGAGTTTCTTCTCCAAATATGAGAATTTAATGAACTCTTCCCATTTTATCAGAGA
GGAGAGAGCTATTCTAACCCCCTAGATGCATCACTGTCAACGTGGTATCAATCTTAAGAACATG
AAAAGGCATCACAACTTAGGTATCTCAAACTATGATATTAAAAGAAGTTCAATATTGATTATCC
CACTTACCATCATCAGATACAAGCCTCACAAAGTCAGCCTTAATTTTATCATTAAGTCGCGGCC
CACTCTTGTCCTTCTCTTCCTTCTTCGCATTACCTTGAAA
						
					

			
		

Sequences
Splice junction sequence	TACCATCATCAGATACAAGCCTCACAAAGTCAGCCTTAATTTTATCATTAAGTCGCGGCCCACT CTTGTCCTTCTCTTCCTTCTTCGCATTACCTTGAAActtcacgcggtaaccacgttccatcaat cgctttaccatatcagctttcatccttaggtccttctcctcctatagatcagatttaaaaaaag ctttagaa
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 390 Transcript exons: 13030229-13030297,13031396-13031452,13032078-13032176,13 032331-13032398,13033180-13033276 CTTCACGCGGTAACCACGTTCCATCAATCGCTTTACCATATCAGCTTTCATCCTTAGGTCCTTC TCCTCAGTTTTCCCCGTGAAGCGAACTTCTTTGTGTCCAGCCTTTTTCATAACCATTTCAACCT TGCTTTTCACACGATCTTTTTCCCTTATTTGCTTTTTGTACTTCTCTCTGTGGAAGTCCATGAG TTTACACACGGGTGGATTAGCTTTTTGTTGAACCTCAACCAAATCAAGCTTGAGCTCACGAGCA CGTTTAAGAGCATCACGTAGCGAAAGAATTGTATGTCCATCATCAGATACAAGCCTCACAAAGT CAGCCTTAATTTTATCATTAAGTCGCGGCCCACTCTTGTCCTTCTCTTCCTTCTTCGCATTACC TTGAAA
Genomic sequence	CTTCACGCGGTAACCACGTTCCATCAATCGCTTTACCATATCAGCTTTCATCCTTAGGTCCTTC TCCTCCTATAGATCAGATTTAAAAAAAGCTTTAGAATCAAATACCAAAAGTGTTATTCCAAGCC CTCTTAGAGAGCAAAATGTTGTTGATTTGGAGCTGAAGGACTTGGAATGGAGACAGATTTGCAA CAAAATCGTTTCATAGAGAGAAAGAAACCAAATCCTCAACAATCCTTGGTGAGTGAAAAGATCA AAAGCATTGTTCGTGTTGTGGTAGTAAAAACAATCGGAGGAAATAAACAAAAGCTGAAACAATA TAGCAATATTACTAATCTATGCGTATATTTCAAGTTTTTTACTTTTAGATTTCAGGCAATGACA AATGGGCTAATGAAGATATCCACCTTTGACTTTTAAATGCTTCTATCCACAAACATGTTTGGTT CATCATATACATATATATAGATAGATAGACAGATACTTCACGAAATTCTCAAATATAAGTTGGT TAACATCTTGTAAGACCCCTAGTTAGGATTATATGAGGATAATTAGTATGTTTGGTAGGAAGGA CATTTTAGTAATTAGATACTAAGCTGGTTAGGTTATTTCGCTTTAAATAGAGGGGTTGGGTTGA GGTAAAGTTGTGAAGAATTTTGTAGTGGGGATTTCCTAAATTGAGGAATGTGGGAGAGGATTCT CAGCCCTCTTGAATGTGCTGAGGTATATTGTAATTTCTTCTTGATATTGCAATATATATCGATA TTTTAGTGTTTTTTGGAGTGTTACTGGGTGTTCTTGAGTCTCTTTGTTAGGTGGGATCCTAACA CATCTTTGGCCACTTGATTTTCATACACCTAAAATGTGCAGGAAAAAAATGCTAAAGATGAATC AATAAGAACATACTTATCTTGAGCTAACAAGTTGCTTTAAAAAAGATGGTACAGAACTTTCATC ATTGAACTAGAGCACAAACCATAGTTTAAAACACAACAATCATGGTCACTCAATTCAGTTTTAC TATAGAGAATAGAGATGGAGAAAGATAGAGACTGAGATAGTAAATTATATTTCATCAGCATGGA ATTCAATCATATCACCACCAGAGAGTCTACAAGTACATTCCAGACAGCAAAAGGAAACATTAAA AAATAAGTCACTTACAGTTTTCCCCGTGAAGCGAACTTCTTTGTGTCCAGCCTTTTTCATAACC ATTTCAACCTGCAAGAATATGAATTTGTCTCATGATAACAACGCTTCATCTAATATCAACTTTA AGTTGTCATTTCTGAATGCCTGAAAGTACTACTTCTAAGTTCTAACAAGAAAAGGTAACTAAAA AACCTGGCATAACTTCAAAAGGGCCATTCAATAAAAATAAATTGAAGCCAGAGCTAAAGATATT TGCATGTCATAGATAGCCTTTAAAACGGTCAAAGTTATTGGAGCAAATTAATGATATCTTTCAT AGCACCCAACTTAACAAAGCAAAGGCATGGTGAAAAAACAAAATTTTCATACGGGTGGTAATGA AGCTAGGACAACCAGATTCTGTTGTGTGTTTTATTTATGCAACTATGAAGGTAGTCGAAAAATA TTAGATGTGTTCAATCATCCATGTTTTTTGGCTGATTAAAATCATGTTCTATTCATTACCAGAA TGTACAACAATGCGACACTAACTCGACATATAATTTGATGATAGAATAGAGAGAAGCATCAACA TGGCAGAAAGTAATATATATATATAGATAACAATTATCGAATTTCACATCTCGACTAAAAGCAG TATCCTTAACTTAACAGTATTAACAAACAGATTTGTACATGGCCTTGAGAAACTCACCTTGCTT TTCACACGATCTTTTTCCCTTATTTGCTTTTTGTACTTCTCTCTGTGGAAGTCCATGAGTTTAC ACACGGGTGGATTAGCTTTTTGTTGAACCTGAAAAATATTAGACACATGGAATCAAATTTTGCA AGACCTAATAATAATTAGAAAAGACTGCATTAATTACCAAGATTATAAGTACAGCTATAATAAA TATAAGAAGACAACATAAGGTATTACGATAGCAACATTGAAAATGGAAGTTTACCTCAACCAAA TCAAGCTTGAGCTCACGAGCACGTTTAAGAGCATCACGTAGCGAAAGAATTGTATGTCCTGCAT AAATACATGCAACACATCAACAATAAATTAATAAACATAATCGACATGCATAATGAAAGCCCAA CACAATGTTACACACCTTCTCTACCTGAGAAAATCCATTCTGTTAGAGATTTTGGAGATGTATG ATGGTGGGTGAATTGATTCTTGCTTGGCTACTGGTTTAACGAAGCAGTATGAACTTTAAAGAAC TTTTTTGATACAGTTCTTTTAATTTAGTTATTTAATAGAGTCTCTTTTTAGGTTTGTTAATGGC GTCTCCTAAAAGAATTTTTCCATACTAACCTGTGTTTGACATTCTAGTCAAATGGACAATGTTG TGTACCTCCTGTCCCCCATAAGGAGGACACATTCCTTGTCTAAATTATACATCTTCCTTCTCTT AAAAAACATACGATAATTTTCTTACTCATACTTCCACTATATTCATGCTACTACTTCTCCATAA ACAAGTTAGCATACCCATCGTTCATTGCAATTCATAGATGCAATAGTTGCTTTCTAGCAAATTT CATCCATATAGTGTGTAATTGTACATGAAATACATGAAAAAAAACCAAAATGCTTATCAAATAG TAGTAAACACGAGTTTCTTCTCCAAATATGAGAATTTAATGAACTCTTCCCATTTTATCAGAGA GGAGAGAGCTATTCTAACCCCCTAGATGCATCACTGTCAACGTGGTATCAATCTTAAGAACATG AAAAGGCATCACAACTTAGGTATCTCAAACTATGATATTAAAAGAAGTTCAATATTGATTATCC CACTTACCATCATCAGATACAAGCCTCACAAAGTCAGCCTTAATTTTATCATTAAGTCGCGGCC CACTCTTGTCCTTCTCTTCCTTCTTCGCATTACCTTGAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.466537328

Conservation Information
Conserved circRNAs	NA
PMCS	0.466537328

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							13032142-13030231(-)
						
						Potential amino acid sequence
						
							MDFHREKYKKQIREKDRVKSKVEMVMKKAGHKEVRFTGKTEEKDLRMKADMVKRLMERGYRVKF
QGNAKKEEKDKSGPRLNDKIKADFVRLVSDDGHTILSLRDALKRARELKLDLVEVQQKANPPVC
KLMDFHREKYKKQIREKDRVKSKVEMVMKKAGHKEVRFTGKTEEKDLRMKADMVKRLMERGYRV
KFQGNAKKEEKDKSGPRLNDKIKADFVRLVSDDGHTILSLRDALKRARELKLDLVEVQQKANPP
VCKLMDFHREKYKKQIREKDRVKSKVEMVMKKAGHKEVRFTGKTEEKDLRMKADMVKRLMERGY
RVKFQGNAKKEEKDKSGPRLNDKIKADFVRLVSDDGHTILSLRDALKRARELKLDLVEVQQKAN
PPVCKLMDFHREKYKKQIREKDRVKSKVEMVMKKAGHKEVRFTGKTEEKDLRMKADMVKRLMER
GYRVK
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to salt stress in root

Functional Information
Coding potential	Y
Potential coding position	13032142-13030231(-)
Potential amino acid sequence	MDFHREKYKKQIREKDRVKSKVEMVMKKAGHKEVRFTGKTEEKDLRMKADMVKRLMERGYRVKF QGNAKKEEKDKSGPRLNDKIKADFVRLVSDDGHTILSLRDALKRARELKLDLVEVQQKANPPVC KLMDFHREKYKKQIREKDRVKSKVEMVMKKAGHKEVRFTGKTEEKDLRMKADMVKRLMERGYRV KFQGNAKKEEKDKSGPRLNDKIKADFVRLVSDDGHTILSLRDALKRARELKLDLVEVQQKANPP VCKLMDFHREKYKKQIREKDRVKSKVEMVMKKAGHKEVRFTGKTEEKDLRMKADMVKRLMERGY RVKFQGNAKKEEKDKSGPRLNDKIKADFVRLVSDDGHTILSLRDALKRARELKLDLVEVQQKAN PPVCKLMDFHREKYKKQIREKDRVKSKVEMVMKKAGHKEVRFTGKTEEKDLRMKADMVKRLMER GYRVK
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to salt stress in root

			
						 Other Information
					
						References
						Zhu et al., 2019

circRNA

Detail information of Csa2G270880_circ_g.1

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